Locus 7303

Sequence ID	X_DroMel_CAF1
Location	18,202,236 – 18,202,351
Length	115
Max. P	0.679056

overview

Window 0

Location	18,202,236 – 18,202,338
Length	102
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	75.95
Mean single sequence MFE	-31.12
Consensus MFE	-20.10
Energy contribution	-19.94
Covariance contribution	-0.16
Combinations/Pair	1.25
Mean z-score	-1.56
Structure conservation index	0.65
SVM decision value	0.30
SVM RNA-class probability	0.679056
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18202236 102 + 22224390
AGCUAGUU-----------ACUCCGAUUGCUCACGGUGUACCUGGUAGUACGGGAGCUGGUUAGGUGGGGCUCUAUCAAAAUUGUAGAGUUCCAUGAUAAUCCAGGCGUAAUG
.....(((-----------(((((((((((.((.((....))))))))).))))..(((((((.((((((((((((.......))))))))))))..))).))))..))))). ( -36.40)
>DroSec_CAF1 62500 85 + 1
----------------------------GCUCACGGUGUAACUGGUAGUGCGGUAGCUGGUUAGAUGGGGCUCUAUCAAAAUUUUAGAGUUCCAUGAUAAUCCCGGCGUAAUG
----------------------------(((..(((.....)))..)))......((((((((.(((((((((((.........)))))))))))..)))..)))))...... ( -26.10)
>DroSim_CAF1 61669 102 + 1
AGUUAGUU-----------ACUCCGAUUGCUCACGGUGUAACUGGUGGUGCGGUAGCUGGUUAGAUGGGGCUCUAUCAAAAUUGUAGAGUUCCAUGAUAAUCCCGACGUAAUG
..((((((-----------((.(((........))).))))))))..((.(((.....(((((.((((((((((((.......))))))))))))..))))))))))...... ( -33.40)
>DroEre_CAF1 56443 113 + 1
AGGUAGUACCGCAUUCAUGGCUCCGAUGGUUCACGGUGUACUUAGAAGUAGGGGACCUGGUUAGAUGGGACCCUAUCAAAAUUGUAGGAUUCUAUGAUAAGCCCGGCGUAAUG
.((.....)).....(((.((.(((..((((((..(.((.((((.((((((((..((.........))..)))))).....)).)))))).)..)))...)))))).)).))) ( -27.60)
>DroYak_CAF1 56520 94 + 1
AGG-------------------CCGAUUGUUCACUGUGUACCUUAUAGUGUGGGAGCUGCUUAGGUGGGGCCCUAUCAAAAUUGUAGGGUUCUAUGAUAAUCCCGGCGUAAUG
..(-------------------((.......(((((((.....))))))).((((....(....((((((((((((.......)))))))))))))....)))))))...... ( -32.10)
>consensus
AGGUAGU_____________CUCCGAUUGCUCACGGUGUACCUGGUAGUGCGGGAGCUGGUUAGAUGGGGCUCUAUCAAAAUUGUAGAGUUCCAUGAUAAUCCCGGCGUAAUG
........................................((((......)))).((((((((.((((((((((((.......))))))))))))..)))..)))))...... (-20.10 = -19.94 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	18,202,261 – 18,202,351
Length	90
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	82.83
Mean single sequence MFE	-28.38
Consensus MFE	-20.30
Energy contribution	-20.14
Covariance contribution	-0.16
Combinations/Pair	1.22
Mean z-score	-1.69
Structure conservation index	0.72
SVM decision value	0.22
SVM RNA-class probability	0.639879
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18202261 90 + 22224390
UGUACCUGGUAGUACGGGAGCUGGUUAGGUGGGGCUCUAUCAAAAUUGUAGAGUUCCAUGAUAAUCCAGGCGUAAUGCCAA--------CCAUUCUCC
.((((......))))(((((.(((((..((((((((((((.......)))))))))))).........(((.....)))))--------)))))))). ( -32.10)
>DroSec_CAF1 62508 90 + 1
UGUAACUGGUAGUGCGGUAGCUGGUUAGAUGGGGCUCUAUCAAAAUUUUAGAGUUCCAUGAUAAUCCCGGCGUAAUGCCCC--------CCAUUCUUC
......(((..(.(((...((((((((.(((((((((((.........)))))))))))..)))..)))))....))))..--------)))...... ( -29.10)
>DroSim_CAF1 61694 90 + 1
UGUAACUGGUGGUGCGGUAGCUGGUUAGAUGGGGCUCUAUCAAAAUUGUAGAGUUCCAUGAUAAUCCCGACGUAAUGCCCC--------CCAUUCUCC
......(((.((.(((...((.(((((.((((((((((((.......))))))))))))..))).)).).)....))).))--------)))...... ( -26.70)
>DroEre_CAF1 56479 90 + 1
UGUACUUAGAAGUAGGGGACCUGGUUAGAUGGGACCCUAUCAAAAUUGUAGGAUUCUAUGAUAAGCCCGGCGUAAUGCCCC--------CAAUUCUCC
.......((((...((((.((.((((.(((((....)))))...((..(((....)))..)).)))).)).......))))--------...)))).. ( -23.40)
>DroYak_CAF1 56537 98 + 1
UGUACCUUAUAGUGUGGGAGCUGCUUAGGUGGGGCCCUAUCAAAAUUGUAGGGUUCUAUGAUAAUCCCGGCGUAAUGCUCCUCCCCGCCACAUUCUCC
...........(((.(((((..(((((.((.(((((((((.......))))))............))).)).))).))..)))))))).......... ( -30.60)
>consensus
UGUACCUGGUAGUGCGGGAGCUGGUUAGAUGGGGCUCUAUCAAAAUUGUAGAGUUCCAUGAUAAUCCCGGCGUAAUGCCCC________CCAUUCUCC
.(((((((......)))).((((((((.((((((((((((.......))))))))))))..)))..)))))....))).................... (-20.30 = -20.14 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:30 2006